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- If you’re using BLAST select the Analyze ‣ Query with BLAST item in the context menu or in the Actions main menu.
- If you’re using BLAST+ select the Analyze ‣ Query with BLAST+ item in the context menu or in the Actions main the main menu.
The Request to local BLAST database dialog will appear:
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Select search - here you should select the tool you would like to use. If the query sequence is a nucleotide sequence then blastn, blastx and tblastx items are available. For a protein sequence, the items are blastp and tblastn.
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Culling limit - the maximum number of hits that will be shown (not equal to a number of annotations). The maximum availablle available number is 5000.
Search for short, nearly exact matches - automatically adjusts the word size and other parameters to improve results for short queries.
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Base name for BLAST DB files - the base name for the BLAST database files.
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